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<div class="title">ArgumentHandler Member List</div>  </div>
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<p>This is the complete list of members for <a class="el" href="class_argument_handler.html">ArgumentHandler</a>, including all inherited members.</p>
<table class="directory">
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#ae693a55bec1ed6005f0976a40a7f854aafe3d262ec86ee31ed3d27ef42b1f235a">alignment</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ac2a6552abc7c6449b625791aefdf6d87">AlphabetType</a> enum name</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#ac2a6552abc7c6449b625791aefdf6d87abf0a7e58c2a951cb200e05ceed789d48">amino</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#a2657983b12529181db92512d3a6fc1fa">ArgumentHandler</a>(char *argv[], int argc)</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#aed3ea207ece08d71c49613911ac8b711">argumentTest</a>()</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"><span class="mlabel">static</span></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ae67a9e8d392b5fcc6f75c8fb7a875afd">CorrectionType</a> enum name</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#ae260b096d1b4cb57e0539b8d37ca1ce6a1af730d3ffbdc6354d6bda2549356cef">dist</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ae693a55bec1ed6005f0976a40a7f854aa9d20bc1085ccd1932c0ffd1d97a10dc6">distance</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#ac2a6552abc7c6449b625791aefdf6d87af8d1253b6d8eecce0eea5eff86ddc63e">dna</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ae67a9e8d392b5fcc6f75c8fb7a875afdab094fe12b9abab259fbf519b9e3399a3">FastTree</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#ad6143cf6a96ca5cc6aeb97f432bc629d">getAbort</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#a8b8d3d08a48c31c010aa80095f85e7cf">getAlphabetType</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#ad2b8028126c07aabb8603c44594ffaa6">getCorrectionType</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ad651123ca891c60ec98111817e38b06a">getInputFile</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#a32c069acf9792739ceb10c87edf22ddc">getInputType</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ac6b6ce1eb3d6fee43314823c8c3e9e6c">getMethod</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#a242123ae240bca20b782c544416e2fc3">getNJTmpDir</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#a56ce7d11969a9efb741fa10fc14deed2">getNumThreads</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#a1c8fbd4a0c2b3d4235c3ef8b83fd43b8">getOutputFile</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ab0837386ce1c1f76280c9917572989dc">getOutputType</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#a817493c9c676890ac210e1384191828c">getUseSSE</a>() const</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ae693a55bec1ed6005f0976a40a7f854a">InputType</a> enum name</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#ae67a9e8d392b5fcc6f75c8fb7a875afda73811e507c334774db6b1ab687639b5f">JukesCantor</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ae67a9e8d392b5fcc6f75c8fb7a875afda543fa5f6ad05da7f2efa6cefee5ba8d9">Kimura2</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#ae67a9e8d392b5fcc6f75c8fb7a875afda2c1d7a65ead4fefe3d70bfc2f64662e0">none</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ae67a9e8d392b5fcc6f75c8fb7a875afda3bc78094126089bb7a17ff4a5ef7e60f">not_assigned</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#ac2a6552abc7c6449b625791aefdf6d87a340fde3e9bbd6b4f6450c7e10baa63a4">null</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr><td class="entry"><a class="el" href="class_argument_handler.html#ae260b096d1b4cb57e0539b8d37ca1ce6">OutputType</a> enum name</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
  <tr class="even"><td class="entry"><a class="el" href="class_argument_handler.html#ae260b096d1b4cb57e0539b8d37ca1ce6ab25e481414af792cbeffe6f6e2f06301">tree</a> enum value</td><td class="entry"><a class="el" href="class_argument_handler.html">ArgumentHandler</a></td><td class="entry"></td></tr>
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